Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1703
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 65634
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:719 original size:18 final size:16
Alignment explanation
Indices: 687--730 Score: 58
Period size: 14 Copynumber: 2.9 Consensus size: 16
677 TAGTTTAAAA
687 AATTATTTTATTAATT
1 AATTATTTTATTAATT
703 AATTA-TTT-TTAATT
1 AATTATTTTATTAATT
*
717 AATT-TTTTAATAAT
1 AATTATTTTATTAAT
731 ATACTTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 13 0.52
15 7 0.28
16 5 0.20
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
AATTATTTTATTAATT
Found at i:1084 original size:16 final size:16
Alignment explanation
Indices: 1035--1084 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
1025 AAATTTAAAA
1035 ATTTTATTTATTATATT
1 ATTTTATTT-TTATATT
* *
1052 A-ATTATTTTTATTTT
1 ATTTTATTTTTATATT
*
1067 ATTTTATTTTTAAATT
1 ATTTTATTTTTATATT
1083 AT
1 AT
1085 GTATTTAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
15 7 0.26
16 19 0.70
17 1 0.04
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTATTTTTATATT
Found at i:2746 original size:20 final size:20
Alignment explanation
Indices: 2702--2740 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2692 AGAAGGAAAT
* *
2702 TGTATCGATATATTTTTCAA
1 TGTATCGATACATTTCTCAA
2722 TGTATCGATACATTTCTCA
1 TGTATCGATACATTTCTCA
2741 TCGTATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.46
Consensus pattern (20 bp):
TGTATCGATACATTTCTCAA
Found at i:5828 original size:49 final size:50
Alignment explanation
Indices: 5775--5887 Score: 165
Period size: 49 Copynumber: 2.3 Consensus size: 50
5765 TTTCACAATT
*
5775 TGTATCGATACATTCTTCATTGTATCGATACATTCT-GGTTTTACCCAGA
1 TGTATCGATACATTCTTCATTGCATCGATACATTCTGGGTTTTACCCAGA
* * *
5824 TGTATCGACACATTCTTCATTGCATTGATACATTTTGGGTTTTACCCAGA
1 TGTATCGATACATTCTTCATTGCATCGATACATTCTGGGTTTTACCCAGA
* *
5874 TATATCGGTACATT
1 TGTATCGATACATT
5888 TCTCAATCTA
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
49 32 0.57
50 24 0.43
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (50 bp):
TGTATCGATACATTCTTCATTGCATCGATACATTCTGGGTTTTACCCAGA
Found at i:7881 original size:77 final size:74
Alignment explanation
Indices: 7666--7991 Score: 275
Period size: 78 Copynumber: 4.2 Consensus size: 74
7656 TCTACCATTA
* * ** * *
7666 GGGATACTAC-ACCCCGTTATTTTTGAAAGGATACTCCAACTATGGTTTTATTTTTAAATACCAA
1 GGGATACTCCAACCCCGTTATTTTCGAAA-GATACTCCAACCCT-GTTTTA-TTTCAAACACCAA
7730 TTTTTCACAATC
63 TTTTTCACAATC
* * *
7742 GAGGATACTCCAACCTCATTATTTTCGAGAGGATACTCCAACCCTGATTTTATTTCAGAACACCA
1 G-GGATACTCCAACCCCGTTATTTTCGA-AAGATACTCCAACCCTG-TTTTATTTCA-AACACCA
7807 ATTTTTCACAATC
62 ATTTTTCACAATC
* *
7820 GGGATACTCCAACCCCGTTATTTTCGAAAAATACTCAAACCCTAGTTTTATTTCCACAACA-CAG
1 GGGATACTCCAACCCCGTTATTTTCGAAAGATACTCCAACCCT-GTTTTATTT-CA-AACACCA-
7884 ATTTTTCACAATC
62 ATTTTTCACAATC
* * * * * *
7897 AAGAATACTCCAACCCCCG-TATTTTCGAAGGGATATTCCAACTC-GACTTTATTTTCAAAACAC
1 -GGGATACTCCAA-CCCCGTTATTTTCGAA-AGATACTCCAACCCTG-TTTTA-TTTC-AAACAC
** *
7960 TGATTTTTCATAATC
60 CAATTTTTCACAATC
7975 GGGGATACTCC-ACCCCG
1 -GGGATACTCCAACCCCG
7992 ATTTTATTTC
Statistics
Matches: 206, Mismatches: 29, Indels: 30
0.78 0.11 0.11
Matches are distributed among these distances:
76 29 0.14
77 59 0.29
78 99 0.48
79 19 0.09
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.33
Consensus pattern (74 bp):
GGGATACTCCAACCCCGTTATTTTCGAAAGATACTCCAACCCTGTTTTATTTCAAACACCAATTT
TTCACAATC
Found at i:8018 original size:49 final size:50
Alignment explanation
Indices: 7926--8040 Score: 144
Period size: 49 Copynumber: 2.3 Consensus size: 50
7916 TATTTTCGAA
* * * *
7926 GGGATATTCCAACTCGACTTTATTTTCAAAACACTGATTTTTCA-TAATCG
1 GGGATACTCCAACCCGACTTTATTTTCAAAACACTAAATTTTCACT-ATCG
* *
7976 GGGATACTCCACCCCGATTTTA-TTTCAAAACACTAAATTTTCACTATCG
1 GGGATACTCCAACCCGACTTTATTTTCAAAACACTAAATTTTCACTATCG
*
8025 AGGATACTCCAACCCG
1 GGGATACTCCAACCCG
8041 TTATTTCTGA
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
49 37 0.66
50 19 0.34
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (50 bp):
GGGATACTCCAACCCGACTTTATTTTCAAAACACTAAATTTTCACTATCG
Found at i:8110 original size:78 final size:77
Alignment explanation
Indices: 7979--8339 Score: 249
Period size: 78 Copynumber: 4.6 Consensus size: 77
7969 ATAATCGGGG
* * *
7979 ATACTCC-ACCCCGATTTTA-TTTCAAAACA-CTAAATTTTCACTATC-GAGGATACTCCAA-CC
1 ATACTCCAACCCTGATTTTATTTTCAAAACATC-AATTTTTCACAATCGGA-GATACTCCAACCC
*
8039 CGTTATTTCTGAGAAA
64 CGTTA-TTCTCA-AAA
* * *
8055 ATACTCCAACCCTGATTTTATTTTCAAAACATCGATTTTCCACAATCGGAGATACTCCAACCCCA
1 ATACTCCAACCCTGATTTTATTTTCAAAACATCAATTTTTCACAATCGGAGATACTCCAACCCCG
* **
8120 TTATTTTCGAGAGG
66 TTATTCTC-A-AAA
* * * * * * *
8134 ATACACTAA-CCTCGGTTTTA-TTTCAAAATATCAATTTTTCACTATCGG-GATACTTCAACCCT
1 ATACTCCAACCCT-GATTTTATTTTCAAAACATCAATTTTTCACAATCGGAGATACTCCAACCCC
*
8196 GTTATTCTCAAAGGG
65 GTTATTCTCAAA--A
* * * * * *
8211 ATACTCTAACCCT-AGTTTT-TGTTTCTAGAACACCGATTTTTCACAATCGGGGATACTCTAACC
1 ATACTCCAACCCTGA-TTTTAT-TTTC-AAAACATCAATTTTTCACAATCGGAGATACTCCAACC
* *
8274 CCGCTATTCCCAAAA
63 CCGTTATTCTCAAAA
* * *
8289 GGATGCTCCAACCCCTG-TTTTATTTTTAAAACATCAATTTTTCACCATCGG
1 --ATACTCCAA-CCCTGATTTTATTTTCAAAACATCAATTTTTCACAATCGG
8340 GGAATGTACT
Statistics
Matches: 223, Mismatches: 42, Indels: 37
0.74 0.14 0.12
Matches are distributed among these distances:
75 1 0.00
76 8 0.04
77 43 0.19
78 67 0.30
79 64 0.29
80 35 0.16
81 5 0.02
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.34
Consensus pattern (77 bp):
ATACTCCAACCCTGATTTTATTTTCAAAACATCAATTTTTCACAATCGGAGATACTCCAACCCCG
TTATTCTCAAAA
Found at i:8160 original size:205 final size:205
Alignment explanation
Indices: 7772--8194 Score: 499
Period size: 205 Copynumber: 2.1 Consensus size: 205
7762 ATTTTCGAGA
* * *
7772 GGATACTCCAACCCTGATTTTATTTCAGAACACCAATTTTTCACAATCGGGATACTCCAACCCCG
1 GGATACTCCAACCCCGATTTTATTTCAAAACACCAAATTTTCACAATCGGGATACTCCAACCCCG
* *
7837 TTATTTTCGAAAAATACTCAAACCCTAGTTTTATTTCCACAACACAGATTTTTCACAATCAAGAA
66 TTATTTTCGAAAAATACTCAAACCCTAGTTTTATTTCCAAAACACAGATTTTCCACAATCAAGAA
* **
7902 TACTCCAACCCCCGTATTTTCGAAGGGATATTCCAACTCGACTTTATTTTCAAAACACTGATTTT
131 TACTCCAACCCCAGTATTTTCGAAGGGATACACCAACTCGACTTTATTTTCAAAACACTGATTTT
7967 TCATAATCGG
196 TCATAATCGG
* *
7977 GGATACTCC-ACCCCGATTTTATTTCAAAACACTAAATTTTCACTATCGAGGATACTCCAA-CCC
1 GGATACTCCAACCCCGATTTTATTTCAAAACACCAAATTTTCACAATCG-GGATACTCCAACCCC
* *
8040 GTTA-TTTCTGAGAAAATACTCCAACCCT-GATTTTATTTTCAAAACATC-GATTTTCCACAATC
65 GTTATTTTC-GA-AAAATACTCAAACCCTAG-TTTTATTTCCAAAACA-CAGATTTTCCACAATC
* * * ** *
8102 -GGAGATACTCCAACCCCATTATTTTCG-AGAGGATACACTAACCTCGGTTTTA-TTTCAAAATA
126 AAGA-ATACTCCAACCCCAGTATTTTCGAAG-GGATACACCAA-CTCGACTTTATTTTCAAAACA
*
8164 -TCAATTTTTCACT-ATC-G
188 CT-GATTTTTCA-TAATCGG
*
8181 GGATACTTCAACCC
1 GGATACTCCAACCC
8195 TGTTATTCTC
Statistics
Matches: 187, Mismatches: 20, Indels: 22
0.82 0.09 0.10
Matches are distributed among these distances:
203 4 0.02
204 58 0.31
205 115 0.61
206 10 0.05
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.32
Consensus pattern (205 bp):
GGATACTCCAACCCCGATTTTATTTCAAAACACCAAATTTTCACAATCGGGATACTCCAACCCCG
TTATTTTCGAAAAATACTCAAACCCTAGTTTTATTTCCAAAACACAGATTTTCCACAATCAAGAA
TACTCCAACCCCAGTATTTTCGAAGGGATACACCAACTCGACTTTATTTTCAAAACACTGATTTT
TCATAATCGG
Found at i:8200 original size:156 final size:156
Alignment explanation
Indices: 7993--8275 Score: 362
Period size: 156 Copynumber: 1.8 Consensus size: 156
7983 TCCACCCCGA
*
7993 TTTTATTTCAAAACACTAAATTTTCACTATCGAGGATACTCCAACCCGTTATTTCTGAGAA-AAT
1 TTTTATTTCAAAACACTAAATTTTCACTATCGAGGATACTCCAACCCGTTA-TTCTCA-AAGAAT
*
8057 ACTCCAACCCT-GATTTTAT-TTTC-AAAACATCGATTTTCCACAATCGGAGATACTCCAACCCC
64 ACTCCAACCCTAG-TTTT-TGTTTCTAAAACACCGATTTTCCACAATCGGAGATACTCCAACCCC
8119 ATTATTTTCGAGAGGATACACTAACCTCGG
127 ATTATTTTCGAGAGGATACACTAACCTCGG
* * * *
8149 TTTTATTTCAAAATA-TCAATTTTTCACTATCG-GGATACTTCAACCCTGTTATTCTCAAAGGGA
1 TTTTATTTCAAAACACT-AAATTTTCACTATCGAGGATACTCCAACCC-GTTATTCTCAAA-GAA
* * * * *
8212 TACTCTAACCCTAGTTTTTGTTTCTAGAACACCGATTTTTCACAATCGGGGATACTCTAACCCC
63 TACTCCAACCCTAGTTTTTGTTTCTAAAACACCGATTTTCCACAATCGGAGATACTCCAACCCC
8276 GCTATTCCCA
Statistics
Matches: 109, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
154 2 0.02
155 20 0.18
156 52 0.48
157 35 0.32
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.34
Consensus pattern (156 bp):
TTTTATTTCAAAACACTAAATTTTCACTATCGAGGATACTCCAACCCGTTATTCTCAAAGAATAC
TCCAACCCTAGTTTTTGTTTCTAAAACACCGATTTTCCACAATCGGAGATACTCCAACCCCATTA
TTTTCGAGAGGATACACTAACCTCGG
Found at i:8282 original size:80 final size:79
Alignment explanation
Indices: 7977--8342 Score: 225
Period size: 79 Copynumber: 4.7 Consensus size: 79
7967 TCATAATCGG
* * * * * *
7977 GGATACTCC-ACCCC-GATTTTA-TTTCAAAACACTAAATTTTCACTATCGAGGATACTCCAA-C
1 GGATACTCCAACCCCTG-TTTTATTTTTAAAACACCAATTTTTCACAATCGGGGATACTTCAACC
* **
8038 CCGTTATTTCTGAGAAA
65 CCGCTA-TTCCCA-AAA
* * * * * *
8055 --ATACTCCAA-CCCTGATTTTATTTTCAAAACATCGATTTTCCACAATCGGAGATACTCCAACC
1 GGATACTCCAACCCCTG-TTTTATTTTTAAAACACCAATTTTTCACAATCGGGGATACTTCAACC
** ** * *
8117 CCATTATTTTCGAGA
65 CCGCTATTCCCAAAA
* * * * * * * *
8132 GGATACACTAACCTCGGTTTTA-TTTCAAAATATCAATTTTTCACTATC-GGGATACTTCAACCC
1 GGATACTCCAACCCCTGTTTTATTTTTAAAACACCAATTTTTCACAATCGGGGATACTTCAACCC
* * * *
8195 TGTTATTCTCAAAG
66 CGCTATTCCCAAAA
* * *
8209 GGATACTCTAA-CCCTAGTTTT-TGTTTCTAGAACACCGATTTTTCACAATCGGGGATAC-TCTA
1 GGATACTCCAACCCCT-GTTTTAT-TTT-TAAAACACCAATTTTTCACAATCGGGGATACTTC-A
8271 ACCCCGCTATTCCCAAAA
62 ACCCCGCTATTCCCAAAA
* * *
8289 GGATGCTCCAACCCCTGTTTTATTTTTAAAACATCAATTTTTCACCATCGGGGA
1 GGATACTCCAACCCCTGTTTTATTTTTAAAACACCAATTTTTCACAATCGGGGA
8343 ATGTACTCCA
Statistics
Matches: 225, Mismatches: 48, Indels: 29
0.75 0.16 0.10
Matches are distributed among these distances:
76 12 0.05
77 46 0.20
78 59 0.26
79 61 0.27
80 42 0.19
81 5 0.02
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (79 bp):
GGATACTCCAACCCCTGTTTTATTTTTAAAACACCAATTTTTCACAATCGGGGATACTTCAACCC
CGCTATTCCCAAAA
Found at i:8313 original size:157 final size:154
Alignment explanation
Indices: 7977--8340 Score: 371
Period size: 157 Copynumber: 2.3 Consensus size: 154
7967 TCATAATCGG
*
7977 GGATACTCC-ACCCCGATTTTATTTCAAAACA-CTAAATTTTCACTATCGAGGATACTCCAACCC
1 GGATACTCCAACCCCG-TTTTATTTCAAAACATC-AATTTTTCACTATCG-GGATACTCCAACCC
* *
8040 GTTATTTCTGAGAAAATACTCCAACCCTGATTTTATTTTCAAAACATCGATTTTCCACAATCGGA
63 GTTATTTCTCAGAAAATACTCCAACCCTGATTTTATTTTCAAAACACCGATTTTCCACAATCGGA
* ** * *
8105 GATACTCCAACCCCATTATTTTCGAGA
128 GATACTCCAACCCCACTATTCCCAAAA
* * * * *
8132 GGATACACTAACCTCGGTTTTATTTCAAAATATCAATTTTTCACTATCGGGATACTTCAACCCTG
1 GGATACTCCAACC-CCGTTTTATTTCAAAACATCAATTTTTCACTATCGGGATACTCCAACCC-G
* * * *
8197 TTA-TTCTCA-AAGGGATACTCTAACCCT-AGTTTT-TGTTTCTAGAACACCGATTTTTCACAAT
64 TTATTTCTCAGAA--AATACTCCAACCCTGA-TTTTAT-TTTC-AAAACACCGATTTTCCACAAT
* * *
8258 CGGGGATACTCTAACCCCGCTATTCCCAAAA
124 CGGAGATACTCCAACCCCACTATTCCCAAAA
* * *
8289 GGATGCTCCAACCCCTGTTTTATTTTTAAAACATCAATTTTTCACCATCGGG
1 GGATACTCCAACCCC-GTTTTA-TTTCAAAACATCAATTTTTCACTATCGGG
8341 GAATGTACTC
Statistics
Matches: 171, Mismatches: 27, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
154 2 0.01
155 27 0.16
156 56 0.33
157 60 0.35
158 26 0.15
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (154 bp):
GGATACTCCAACCCCGTTTTATTTCAAAACATCAATTTTTCACTATCGGGATACTCCAACCCGTT
ATTTCTCAGAAAATACTCCAACCCTGATTTTATTTTCAAAACACCGATTTTCCACAATCGGAGAT
ACTCCAACCCCACTATTCCCAAAA
Found at i:10769 original size:24 final size:24
Alignment explanation
Indices: 10693--10772 Score: 74
Period size: 24 Copynumber: 3.2 Consensus size: 24
10683 GTAATAAGTT
*
10693 ATATATTTATATTATGAATATATTTTA
1 ATAT-TTTATATTAT--ATATATTTAA
*
10720 TTATTTTAT-TTA-ATTATATTTAAA
1 ATATTTTATATTATA-TATATTT-AA
*
10744 ATATTTTATATTATATAAATTTAA
1 ATATTTTATATTATATATATTTAA
10768 ATATT
1 ATATT
10773 AATAATTTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
22 1 0.02
23 7 0.16
24 16 0.36
25 12 0.27
26 6 0.13
27 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (24 bp):
ATATTTTATATTATATATATTTAA
Found at i:10784 original size:30 final size:32
Alignment explanation
Indices: 10743--10808 Score: 91
Period size: 30 Copynumber: 2.1 Consensus size: 32
10733 TTATATTTAA
* * *
10743 AATATTTTATATTATATAAA-TTT-AAATATT
1 AATAATTTATATCAGATAAATTTTAAAATATT
10773 AATAATTTATATCAGATAAATTTTAAAATATT
1 AATAATTTATATCAGATAAATTTTAAAATATT
10805 AATA
1 AATA
10809 TATAATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 17 0.55
31 3 0.10
32 11 0.35
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (32 bp):
AATAATTTATATCAGATAAATTTTAAAATATT
Found at i:11469 original size:11 final size:11
Alignment explanation
Indices: 11444--11487 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
11434 ATTTGATTTT
*
11444 TAAATAAA-AA
1 TAAATAAATTA
11454 TAAATAAATTA
1 TAAATAAATTA
11465 TAAATAAATTAA
1 TAAATAAATT-A
*
11477 AAAATAAATTA
1 TAAATAAATTA
11488 ATAATTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
10 8 0.27
11 12 0.40
12 10 0.33
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
TAAATAAATTA
Found at i:11483 original size:12 final size:12
Alignment explanation
Indices: 11455--11488 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
11445 AAATAAAAAT
*
11455 AAATAAATT-AT
1 AAATAAATTAAA
11466 AAATAAATTAAA
1 AAATAAATTAAA
11478 AAATAAATTAA
1 AAATAAATTAA
11489 TAATTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AAATAAATTAAA
Found at i:11977 original size:17 final size:17
Alignment explanation
Indices: 11939--12015 Score: 59
Period size: 17 Copynumber: 4.4 Consensus size: 17
11929 ATGATGATAT
*
11939 TTTATTATATTTAA-AATG
1 TTTA-TATATTTAATAA-A
11957 TTTATATATTTAATAAA
1 TTTATATATTTAATAAA
* *
11974 TTTAAATAAATTAAT-AA
1 TTTATAT-ATTTAATAAA
* *
11991 TTTATATATATTTATATA
1 TTTATATAT-TTAATAAA
12009 TTTATAT
1 TTTATAT
12016 TATATTTAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
16 1 0.02
17 27 0.56
18 20 0.42
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (17 bp):
TTTATATATTTAATAAA
Found at i:12005 original size:10 final size:10
Alignment explanation
Indices: 11959--12023 Score: 52
Period size: 9 Copynumber: 7.0 Consensus size: 10
11949 TTAAAATGTT
11959 TATATATTTA
1 TATATATTTA
*
11969 -ATAAATTTA
1 TATATATTTA
* *
11978 AATA-AATTA
1 TATATATTTA
11987 -ATA-ATTTA
1 TATATATTTA
11995 TATATA-TT-
1 TATATATTTA
12003 TATATATTTA
1 TATATATTTA
12013 TATTATATTTA
1 TA-TATATTTA
12024 AATTAATTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
8 13 0.28
9 19 0.41
10 6 0.13
11 8 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TATATATTTA
Found at i:12051 original size:24 final size:25
Alignment explanation
Indices: 11988--12051 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
11978 AATAAATTAA
*
11988 TAAT-TTATA-TATATTTATATATT
1 TAATATTATATTATAATTATATATT
*
12011 T-ATATTATATT-TAAATTA-ATTTT
1 TAATATTATATTAT-AATTATATATT
12034 TAATATTATATTATAATT
1 TAATATTATATTATAATT
12052 TTACCTGTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
22 2 0.06
23 12 0.35
24 19 0.56
25 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
TAATATTATATTATAATTATATATT
Found at i:15087 original size:11 final size:10
Alignment explanation
Indices: 15070--15134 Score: 64
Period size: 11 Copynumber: 6.6 Consensus size: 10
15060 TATGAACATT
15070 TTAAAATTTA
1 TTAAAATTTA
15080 TATAAAATTTA
1 T-TAAAATTTA
*
15091 TTAACA--TA
1 TTAAAATTTA
15099 TTAAAATTTA
1 TTAAAATTTA
**
15109 TTAAAAAAATA
1 TT-AAAATTTA
15120 TTAAAATTTA
1 TTAAAATTTA
15130 -TAAAA
1 TTAAAA
15135 AAAATTAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
8 7 0.16
9 5 0.11
10 15 0.33
11 18 0.40
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (10 bp):
TTAAAATTTA
Found at i:15121 original size:29 final size:29
Alignment explanation
Indices: 15059--15123 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
15049 TGATATTGAT
* * *
15059 ATATGAACATTTTAAAATTTATATAAAAT
1 ATATTAACATATTAAAATTTATATAAAAA
*
15088 TTATTAACATATTAAAATTTAT-TAAAAAA
1 ATATTAACATATTAAAATTTATAT-AAAAA
15117 ATATTAA
1 ATATTAA
15124 AATTTATAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.42
Consensus pattern (29 bp):
ATATTAACATATTAAAATTTATATAAAAA
Found at i:15155 original size:21 final size:20
Alignment explanation
Indices: 15096--15142 Score: 78
Period size: 21 Copynumber: 2.4 Consensus size: 20
15086 ATTTATTAAC
15096 ATATTAAAATTTATTAAAAAA
1 ATATTAAAATTTA-TAAAAAA
15117 ATATTAAAATTTATAAAAAA
1 ATATTAAAATTTATAAAAAA
15137 A-ATTAA
1 ATATTAA
15143 TATGTATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 5 0.19
20 8 0.31
21 13 0.50
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
ATATTAAAATTTATAAAAAA
Found at i:17680 original size:22 final size:21
Alignment explanation
Indices: 17637--17680 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
17627 AATACTTATA
* *
17637 ATTTTAAAAAAATTGATAAAT
1 ATTTTAAAAAAATTAAAAAAT
*
17658 ATTTTTAAAAAATTAAAATAAT
1 ATTTTAAAAAAATTAAAA-AAT
17680 A
1 A
17681 AATAATTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
ATTTTAAAAAAATTAAAAAAT
Found at i:18246 original size:8 final size:7
Alignment explanation
Indices: 18203--18249 Score: 60
Period size: 7 Copynumber: 6.7 Consensus size: 7
18193 AAGTTAAATA
18203 TTTTAAT
1 TTTTAAT
18210 TTTTAAT
1 TTTTAAT
18217 TTTTAA-
1 TTTTAAT
* *
18223 ATATAAT
1 TTTTAAT
18230 TTTTAAT
1 TTTTAAT
18237 TTTTATAT
1 TTTTA-AT
18245 TTTTA
1 TTTTA
18250 GTATATATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
6 4 0.12
7 23 0.68
8 7 0.21
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TTTTAAT
Found at i:18606 original size:456 final size:456
Alignment explanation
Indices: 17747--18607 Score: 1075
Period size: 456 Copynumber: 1.9 Consensus size: 456
17737 AAAACAAAAA
17747 TTAATTTTTTAAATATAATTTTTAATTTTTATACTTTTAGTATATATATTTTTTAAAAATAGATA
1 TTAATTTTTTAAATATAATTTTTAATTTTTATACTTTTAGTATATATATTTTTTAAAAATAGAT-
* * * *
17812 ATAATTTAAAAATTATAATTTTAAATTCTTTTATATTTTTAAAATAATTTTTTCTTTTCGAAAAT
65 ATAATTTAAAAATTATAATTTTAAATACCTTTATATTTTAAAAATAATTTTTTCTTTTCAAAAAT
17877 AAAATTTACAAAAAAAAAATGAATGTTGCCACATGCCATCACCTAATTAGTCAATGCCAAATCAC
130 AAAATTTAC-----AAAAA-GAA--TTGCCACATGCCATCACCTAATTAGTCAATGCCAAATCAC
* * * *
17942 TACCGATATTATAGTATTAAATATTTGCAATTTGATTACATAAGTACCATATTGAACATTTTTTA
187 TACCGATATTATAGTAGTAAATATATACAATTTGATTACATAAGTACCACATTGAACATTTTTTA
* ** * * *
18007 AAATTCAAATATTACATTGATAAATTTGATAAACTTACAAGATTACTTATAATATCATACTGAAT
252 AAATACAAATACCACATTAATAAATTTGATAAACTTAAAAAATTACTTATAATATCATACTGAAT
* * * *
18072 ATAAATATGATATCCGAAACTTATCTATTATACATCAAAGTCATATTTTTAATTAATATTAATTC
317 ATAAATATCATATCAGAAACTTATCTATTATACATCAAAATCATATTTCTAATTAATATTAATTC
*
18137 AAAGGTATTATAATATATTTATACATATAATTTATATCATTATAACCCTGTGTTTTAAGTTAAAT
382 AAAGATATTATAATATATTTATACATATAATTTATATCATTATAACCCTGTGTTTTAAGTTAAAT
18202 ATTTTAATTT
447 ATTTTAATTT
* *
18212 TTAA-TTTTTAAATATAATTTTTAATTTTTATATTTTTAGTATATATATATATTTTTTAAAA-A-
1 TTAATTTTTTAAATATAATTTTTAATTTTTATACTTTTAG--TATATATAT-TTTTTAAAAATAG
*
18274 AT-TAGATTTAGAAATTATAATTTTAAATACCTTTAT-TTTTAAAAATAA-TTTTT-TTTTCAAA
63 ATATA-ATTTAAAAATTATAATTTTAAATACCTTTATATTTTAAAAATAATTTTTTCTTTTC-AA
* *
18335 AAATTAAAATTTAC-AAAA-AA-TGCCACATGCCATCACCTAATTAGTCAATGCCACATCACTAT
126 AAA-TAAAATTTACAAAAAGAATTGCCACATGCCATCACCTAATTAGTCAATGCCAAATCACTAC
* ** * ** *
18397 CTATAGTTATAATGTTACGTATTTATATATAATTTGATTGTATAAGTACTACATTGAACA-TTTT
190 CGATA-TTAT-A-G-TA-GTAAATATATACAATTTGATTACATAAGTACCACATTGAACATTTTT
** ** *
18461 TAAAATACAAATACCGTATTAATAAATTTGATAAA-TTATAAAAATTACTTATAATATCATTTTT
250 TAAAATACAAATACCACATTAATAAATTTGATAAACTTA-AAAAATTACTTATAATATCATACTG
* *
18525 AATATAAATATCATAT-ATAAACTTA-CTTGTTATACATCAAAATCATATTTCTAATTAATATTT
314 AATATAAATATCATATCAGAAACTTATC-TATTATACATCAAAATCATATTTCTAATTAATA-TT
18588 AATTCAAAGATATTATAATA
377 AATTCAAAGATATTATAATA
18608 GTTATACATA
Statistics
Matches: 344, Mismatches: 38, Indels: 37
0.82 0.09 0.09
Matches are distributed among these distances:
452 44 0.13
453 4 0.01
454 2 0.01
455 43 0.12
456 91 0.26
457 36 0.10
461 5 0.01
462 9 0.03
463 23 0.07
464 62 0.18
465 6 0.02
466 10 0.03
467 9 0.03
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (456 bp):
TTAATTTTTTAAATATAATTTTTAATTTTTATACTTTTAGTATATATATTTTTTAAAAATAGATA
TAATTTAAAAATTATAATTTTAAATACCTTTATATTTTAAAAATAATTTTTTCTTTTCAAAAATA
AAATTTACAAAAAGAATTGCCACATGCCATCACCTAATTAGTCAATGCCAAATCACTACCGATAT
TATAGTAGTAAATATATACAATTTGATTACATAAGTACCACATTGAACATTTTTTAAAATACAAA
TACCACATTAATAAATTTGATAAACTTAAAAAATTACTTATAATATCATACTGAATATAAATATC
ATATCAGAAACTTATCTATTATACATCAAAATCATATTTCTAATTAATATTAATTCAAAGATATT
ATAATATATTTATACATATAATTTATATCATTATAACCCTGTGTTTTAAGTTAAATATTTTAATT
T
Found at i:18879 original size:2 final size:2
Alignment explanation
Indices: 18874--18917 Score: 70
Period size: 2 Copynumber: 21.5 Consensus size: 2
18864 TTCAAAAAAT
*
18874 TA TA TA TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TGA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
18917 T
1 T
18918 TGCAAACTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:35325 original size:45 final size:45
Alignment explanation
Indices: 35259--35345 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
35249 TTTGTTATTT
*
35259 TTTTAATTCGGTTTGGGTTTAAGTTTATATAGATTTTTAGTTAGA
1 TTTTAATTCGGTTTGGATTTAAGTTTATATAGATTTTTAGTTAGA
*
35304 TTTTAATTGGGTTTGGATTTAAGTTTATATAGATTTTTAGTT
1 TTTTAATTCGGTTTGGATTTAAGTTTATATAGATTTTTAGTT
35346 TGTATTAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.24, C:0.01, G:0.20, T:0.55
Consensus pattern (45 bp):
TTTTAATTCGGTTTGGATTTAAGTTTATATAGATTTTTAGTTAGA
Found at i:35370 original size:45 final size:45
Alignment explanation
Indices: 35276--35375 Score: 123
Period size: 45 Copynumber: 2.2 Consensus size: 45
35266 TCGGTTTGGG
* * * *
35276 TTTAAGTTTATATAGATTTTTAGTTAGATTTTAATTGGGTTTGGA
1 TTTAAGTTTATATAGATTTTTAGTTAGATATTAAATGGGCTTGAA
*
35321 TTTAAGTTTATATAGATTTTTAGTTTG-TATTAAATGGGCTT-AA
1 TTTAAGTTTATATAGATTTTTAGTTAGATATTAAATGGGCTTGAA
35364 CTTTTAAGTTTA
1 --TTTAAGTTTA
35376 ATTTATATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
43 1 0.02
44 11 0.23
45 36 0.75
ACGTcount: A:0.28, C:0.02, G:0.17, T:0.53
Consensus pattern (45 bp):
TTTAAGTTTATATAGATTTTTAGTTAGATATTAAATGGGCTTGAA
Found at i:37190 original size:20 final size:20
Alignment explanation
Indices: 37167--37240 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
37157 ACAATTCAAA
37167 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
37187 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
37208 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
37228 GTATCGATACATG
1 GTATCGATACATG
37241 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:37211 original size:21 final size:21
Alignment explanation
Indices: 37185--37260 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
37175 ACATGTTGCA
37185 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
37206 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
37226 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
37247 ATGTATCGATACAT
1 ATGTATCGATACAT
37261 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:37218 original size:41 final size:41
Alignment explanation
Indices: 37167--37260 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
37157 ACAATTCAAA
37167 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
37208 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
37249 GTATCGATACAT
1 GTATCGATACAT
37261 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:37317 original size:13 final size:13
Alignment explanation
Indices: 37299--37324 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37289 TACAGCAAGT
37299 ATGTATCGATACA
1 ATGTATCGATACA
37312 ATGTATCGATACA
1 ATGTATCGATACA
37325 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:39572 original size:21 final size:21
Alignment explanation
Indices: 39539--39583 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
39529 TTGCAAGTTG
*
39539 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
39561 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
39581 AAA
1 AAA
39584 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:41407 original size:15 final size:15
Alignment explanation
Indices: 41387--41417 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
41377 TAAAAATGTC
*
41387 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
41402 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
41417 C
1 C
41418 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:43516 original size:20 final size:20
Alignment explanation
Indices: 43437--43516 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
43427 AATGTCCAAA
*
43437 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
43457 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
43482 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
43502 TTGTATCGATACATT
1 ATGTATCGATACATT
43517 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:43520 original size:13 final size:13
Alignment explanation
Indices: 43502--43540 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
43492 ACATTTTTCT
43502 TTGTATCGATACA
1 TTGTATCGATACA
43515 TTGTATCGATACA
1 TTGTATCGATACA
*
43528 CTGTATCGATACA
1 TTGTATCGATACA
43541 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:46003 original size:20 final size:20
Alignment explanation
Indices: 45980--46053 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
45970 ACAATTCAAG
45980 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
46000 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
46021 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
46041 GTATCGATACATG
1 GTATCGATACATG
46054 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:46024 original size:21 final size:21
Alignment explanation
Indices: 45998--46073 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
45988 ACATGTTGCA
45998 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
46019 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
46039 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
46060 ATGTATCGATACAT
1 ATGTATCGATACAT
46074 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:46031 original size:41 final size:41
Alignment explanation
Indices: 45980--46073 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
45970 ACAATTCAAG
45980 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
46021 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
46062 GTATCGATACAT
1 GTATCGATACAT
46074 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:47164 original size:21 final size:20
Alignment explanation
Indices: 47139--47178 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
47129 AAAATATGTT
*
47139 TGAGAAAGAAAATTTTTTGAA
1 TGAG-AAGAAAAGTTTTTGAA
*
47160 TGAGACGAAAAGTTTTTGA
1 TGAGAAGAAAAGTTTTTGA
47179 TTTTTTGCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.33
Consensus pattern (20 bp):
TGAGAAGAAAAGTTTTTGAA
Found at i:48483 original size:11 final size:10
Alignment explanation
Indices: 48419--48469 Score: 50
Period size: 11 Copynumber: 4.8 Consensus size: 10
48409 ATAATAAAAG
48419 TTAATTAATT
1 TTAATTAATT
48429 TTAAAATT-ATT
1 TT--AATTAATT
48440 TTAATTAATAT
1 TTAATTAAT-T
*
48451 TAAATTAAATT
1 TTAATT-AATT
48462 TTAATTAA
1 TTAATTAA
48470 ATTACATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
9 4 0.12
10 6 0.18
11 17 0.50
12 7 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TTAATTAATT
Found at i:48483 original size:22 final size:22
Alignment explanation
Indices: 48419--48473 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
48409 ATAATAAAAG
*
48419 TTAATTAATTTTAAAATT--ATT
1 TTAATTAATATT-AAATTAAATT
48440 TTAATTAATATTAAATTAAATT
1 TTAATTAATATTAAATTAAATT
48462 TTAATTAA-ATTA
1 TTAATTAATATTA
48474 CATTTTAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 5 0.16
21 15 0.48
22 11 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTAATTAATATTAAATTAAATT
Found at i:48491 original size:16 final size:16
Alignment explanation
Indices: 48449--48497 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
48439 TTTAATTAAT
*
48449 ATTAAATTAAATTTTA
1 ATTAAATTACATTTTA
48465 ATTAAATTACATTTTA
1 ATTAAATTACATTTTA
*
48481 ATTCAAA-TACATATTA
1 ATT-AAATTACATTTTA
48497 A
1 A
48498 ATATTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 27 0.90
17 3 0.10
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTAAATTACATTTTA
Found at i:57080 original size:51 final size:49
Alignment explanation
Indices: 56998--57169 Score: 146
Period size: 51 Copynumber: 3.4 Consensus size: 49
56988 TCTCAGAAAT
* * * * * * *
56998 AACGAGGTTGAAGTATCCTCGATTGTAGAAAATCGATATTTTGAAAATAA
1 AACGGGGTTGGAGTATCCCCAATGGTGGAAAAT-GATGTTTTGAAAATAA
* * ** * *
57048 AATCGGGATTGGAGTATCTCTGATGGTGGAAAATTAGTGTTTTGGAAATAA
1 AA-CGGGGTTGGAGTATCCCCAATGGTGGAAAATGA-TGTTTTGAAAATAA
* * *
57099 AACCGGGGTTGGAGTATCCCCAATTGTGCAAAATTGGTGTTTTGAAAATAA
1 AA-CGGGGTTGGAGTATCCCCAATGGTGGAAAA-TGATGTTTTGAAAATAA
57150 AACTGGGGTTGGAGTATCCC
1 AAC-GGGGTTGGAGTATCCC
57170 TTCAGAAATA
Statistics
Matches: 97, Mismatches: 21, Indels: 7
0.78 0.17 0.06
Matches are distributed among these distances:
50 4 0.04
51 92 0.95
52 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (49 bp):
AACGGGGTTGGAGTATCCCCAATGGTGGAAAATGATGTTTTGAAAATAA
Found at i:57194 original size:79 final size:79
Alignment explanation
Indices: 57103--57405 Score: 335
Period size: 79 Copynumber: 3.8 Consensus size: 79
57093 AAATAAAACC
* * * * * * *
57103 GGGGTTGGAGTATCCCCAATTGTGCAAAATTGGTGTTTTGAAAATAAAACTGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAACTGGGGTTAGAGTATC
57168 CCTTCAGAAATAAT
66 CCTTCAGAAATAAT
* * * * *
57182 AGGGTTGGAGTATCCCCGATTGTGGAAAATCGATATTTT-AGAAATAAAA-TCGAGGTTGGAGTA
1 GGGGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGA-AAATAAAACT-GGGGTTAGAGTA
57245 TCCC-TCAGAAATAAT
64 TCCCTTCAGAAATAAT
* * * *
57260 GGGGTTGGAGTATCTCCGATTATGAAAAATCGATATTTTGGAAATAAAACTGGGGTTAAAGTATT
1 GGGGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAACTGGGGTTAGAGTATC
* * *
57325 TCTT-TGAAAATAAC
66 CCTTCAG-AAATAAT
* * * * *
57339 GGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAAAAATAAAACCGGGGTTAGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAACTGGGGTTAGAGTATC
57404 CC
66 CC
57406 CTCGAAAATA
Statistics
Matches: 189, Mismatches: 29, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
78 68 0.36
79 121 0.64
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (79 bp):
GGGGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAACTGGGGTTAGAGTATC
CCTTCAGAAATAAT
Found at i:57212 original size:181 final size:181
Alignment explanation
Indices: 56906--57246 Score: 458
Period size: 181 Copynumber: 1.9 Consensus size: 181
56896 AAATTTAATA
* * * * *
56906 TTTTGGAGATAAAAGCGGGGTTGGATTATCCTCGATTGTGAAAAATCGATGTTCTAGAAATAAAA
1 TTTTGGAAATAAAACCGGGGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTCTAGAAATAAAA
* * * *
56971 CTGATGTTGGAGTATTCTCTCAGAAATAACGAGGTTGAAGTATCCTCGATTGTAGAAAATCGATA
66 CTGAGGTTGGAGTATCCTCTCAGAAATAAAGAGGTTGAAGTATCCCCGATTGTAGAAAATCGATA
57036 TTTT-GAAAATAAAATCG-GGATTGGAGTATCTCTGATGGTGGAAAATTAGTG
131 TTTTAG-AAATAAAATCGAGG-TTGGAGTATCTCTGATGGTGGAAAATTAGTG
* * * *
57087 TTTTGGAAATAAAACCGGGGTTGGAGTATCCCCAATTGTGCAAAATTGGTGTT-TTGAAAATAAA
1 TTTTGGAAATAAAACCGGGGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTCTAG-AAATAAA
* * *
57151 ACTGGGGTTGGAGTATCC-CTTCAGAAATAATAG-GGTTGGAGTATCCCCGATTGTGGAAAATCG
65 ACTGAGGTTGGAGTATCCTC-TCAGAAATAA-AGAGGTTGAAGTATCCCCGATTGTAGAAAATCG
57214 ATATTTTAGAAATAAAATCGAGGTTGGAGTATC
128 ATATTTTAGAAATAAAATCGAGGTTGGAGTATC
57247 CCTCAGAAAT
Statistics
Matches: 139, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
180 3 0.02
181 132 0.95
182 4 0.03
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (181 bp):
TTTTGGAAATAAAACCGGGGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTCTAGAAATAAAA
CTGAGGTTGGAGTATCCTCTCAGAAATAAAGAGGTTGAAGTATCCCCGATTGTAGAAAATCGATA
TTTTAGAAATAAAATCGAGGTTGGAGTATCTCTGATGGTGGAAAATTAGTG
Found at i:57401 original size:157 final size:157
Alignment explanation
Indices: 57103--57405 Score: 374
Period size: 157 Copynumber: 1.9 Consensus size: 157
57093 AAATAAAACC
* * * * * **
57103 GGGGTTGGAGTATCCCCAATTGTGCAAAATTGGTGTTTTGAAAATAAAACTGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCAATTATGAAAAATCGATATTTTGAAAATAAAACTGGGGTTAAAGTATC
* * * * *
57168 CCTTCAGAAATAATAGGGTTGGAGTATCCCCGATTGTGGAAAATCGATATTTTAGAAATAAAATC
66 CCTTCAGAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTAAAAATAAAACC
*
57233 GAGGTTGGAGTATCCCTCAGAAATAAT
131 GAGGTTAGAGTATCCCTCAGAAATAAT
* * * *
57260 GGGGTTGGAGTATCTCCGATTATGAAAAATCGATATTTTGGAAATAAAACTGGGGTTAAAGTATT
1 GGGGTTGGAGTATCCCCAATTATGAAAAATCGATATTTTGAAAATAAAACTGGGGTTAAAGTATC
* * * * * *
57325 TCTT-TGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAAAAATAAAAC
66 CCTTCAG-AAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTAAAAATAAAAC
*
57389 CGGGGTTAGAGTATCCC
130 CGAGGTTAGAGTATCCC
57406 CTCGAAAATA
Statistics
Matches: 121, Mismatches: 24, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
156 1 0.01
157 120 0.99
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (157 bp):
GGGGTTGGAGTATCCCCAATTATGAAAAATCGATATTTTGAAAATAAAACTGGGGTTAAAGTATC
CCTTCAGAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTAAAAATAAAACC
GAGGTTAGAGTATCCCTCAGAAATAAT
Found at i:59339 original size:50 final size:50
Alignment explanation
Indices: 59276--59419 Score: 184
Period size: 50 Copynumber: 2.9 Consensus size: 50
59266 GAAATGGTTA
* * *
59276 AAAATGCCTGAATGTATCGATACATTGAGA-AATGTATCGATACATCTGGGT
1 AAAAT-CCAGAATGTATCGATACAATGA-ACAATGTATCGATACATCTAGGT
* *
59327 AAAA-CTCAGAATGTATCGATATAATAAACAATGTATCGATACATCTAGGT
1 AAAATC-CAGAATGTATCGATACAATGAACAATGTATCGATACATCTAGGT
* *
59377 AAAATCCAGAATGTATCGATACAATGAAGAATGTATTGATACA
1 AAAATCCAGAATGTATCGATACAATGAACAATGTATCGATACA
59420 AATTGTGAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
49 2 0.02
50 74 0.91
51 5 0.06
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (50 bp):
AAAATCCAGAATGTATCGATACAATGAACAATGTATCGATACATCTAGGT
Found at i:60560 original size:27 final size:27
Alignment explanation
Indices: 60522--60576 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
60512 GGCATTTTTT
*
60522 CCTTTTAAGTCCATC-ACTCCGTGGCAC
1 CCTTATAAGTCCA-CAACTCCGTGGCAC
*
60549 CCTTATAAGTCCACAACTCTGTGGCAC
1 CCTTATAAGTCCACAACTCCGTGGCAC
60576 C
1 C
60577 TTGTTTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.22, C:0.36, G:0.15, T:0.27
Consensus pattern (27 bp):
CCTTATAAGTCCACAACTCCGTGGCAC
Found at i:60606 original size:33 final size:32
Alignment explanation
Indices: 60496--62261 Score: 1181
Period size: 33 Copynumber: 55.8 Consensus size: 32
60486 CTTTTTTGAA
* *
60496 AAGTCCACAACTCTGTGGCA-TTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTT-CTTTT
*
60528 AAGTCCATC-ACTCCGTGGCACC-----CTTAT
1 AAGTCCA-CAACTCCGTGGCACCTTTTTCTTTT
*
60555 AAGTCCACAACTCTGTGGCACCTTGTTTCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTTCTTTT
* * * **
60588 AAGCCCACAACTCCGTGGCATCTTTTCCTTCA
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* * *
60620 AAGTCCACAATTTCATGGCACCTTGTTTCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTTCTTTT
* *
60653 AAGTCCACAACTCCGTGGCATCTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
*
60685 AAGTCCATAACTCCGTGGCACC-----CTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* * * * *
60712 TAGTCTACAACTCTGTGACACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTTCTTTT
* * * **
60745 AAGTCCACAACTTCGTTGCCCCTTTTTCCTTCA
1 AAGTCCACAACTCCGTGGCACCTTTTT-CTTTT
* * *
60778 AAATCCACAACTCCGTAGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTTCTTTT
*
60811 AAGTCCACAACTCCGTGG----TTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
60839 AAGTCCACAACTCCGTGG-----TTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTC-TTTT
60867 AAGTCCACAACTCCGTGGCA-C----TCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* * * *
60894 AAATCCACAACTCCGTGGTACCTTATCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* * *
60926 AAGTCCACAACTCCGTGGTACCTTATCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
60958 AAGTCCACAACTCCGTGGCA-C----TCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* * *
60985 AAGTCCACAACTCTGTGGTACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTTCTTTT
* *
61018 AAGTTCACAACTCTGTGGCACCTTTTT-TTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* * * ** *
61049 GAGTCCATAATTCTATAGCACC-TTTTCTTCTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTT-TT
* * * * **
61081 AAAGCCCATAACTCCGTGGTA-TTTTTTCCTTCA
1 -AAGTCCACAACTCCGTGGCACCTTTTT-CTTTT
* *
61114 AAGTCCACAACTCCATGGCACCTTGTTCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* * *
61146 GAAGTCCACAACTCCATGGCATCTTATTCTTTTT
1 -AAGTCCACAACTCCGTGGCACCTTTTTC-TTTT
61180 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* *
61212 CAAAGTCCACAACTCTGTAGCACCTTGTTTCTTTT
1 --AAGTCCACAACTCCGTGGCACCTT-TTTCTTTT
* * * *
61247 AAGTCTACAACTCTGTGGCATCTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
** *
61279 AAGTCCATTACTCCGTGGTACC----T-TTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* *
61306 AAGTCCACAACTCTGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTTCTTTT
* * * *
61339 AATTCCACAACTCCCTGGCACATTTTTTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* *
61371 CAAAGTCCACAACTCCGTGGGACCTTATTCTTTTT
1 --AAGTCCACAACTCCGTGGCACCTTTTTC-TTTT
** * *
61406 AAGTCCACAACTTTGTGGCA-CATTTTCTTCTCA
1 AAGTCCACAACTCCGTGGCACCTTTTTCTT-T-T
* * * * * **
61439 AAGCCCATAACTCTGTGGCATCTTTTCCTTCA
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* * *
61471 AAGTCCACAACTCTGTGGTACCTTGTTCATTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTC-TTTT
* * *
61504 AAGTCCACAACTCTGTGGTACCTTTTTCTTCGTA
1 AAGTCCACAACTCCGTGGCACCTTTTTCTT--TT
* * * * * *
61538 AAGCCCATAACTTCATGGCATCTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* * *
61570 AAGTCCAAAACTCCATGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTTCTTTT
*
61603 AAGTCCACAACTCCGTGGCACCTTTTTCTTCTCA
1 AAGTCCACAACTCCGTGGCACCTTTTTCTT-T-T
* * *
61637 AAGCCCACAACTCCGTGGCATCTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* * *
61669 AAGTCCATAACTTCGTGACACC-----CTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* * * * * *
61696 AAGTCTATAACTTCATGGCACTTTTTTCTTCTCA
1 AAGTCCACAACTCCGTGGCACCTTTTTCTT-T-T
* * ** * * **
61730 AAGGCCACAACTCTGTGATATCTTTTCCTTCA
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
*
61762 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTTCTTTT
* * *** * *
61795 AAGTCCATAATTTTATGGCACTTTTTTCTTTA
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* * ** * * *
61827 AAGCCCATAACTCTATGGCATCTTTTCCTTTA
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
*
61859 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTTCTTTT
** *
61892 AAGTCCACAACTCTATGGCACATTTTTCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* * *
61924 CAAAGCCCACAACTCCGTGCCA-TTTTTTCCTTTT
1 --AAGTCCACAACTCCGTGGCACCTTTTT-CTTTT
* *
61958 AAGTCCACAACTTCATGGCACC-----CTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* *
61985 AAGTCCACAACTCTGTGGCACCTCTTTCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* * * *
62017 CAAAGCCCACAACTTCGTGGCATCTTTTTTTTTT
1 --AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
*
62051 AAGT---CAACTCCGTGGCA-CTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTTCTTTT
* * * * **
62080 AAGTCCATAACTCCATGGAACATTTTCTCTTCA
1 AAGTCCACAACTCCGTGGCACCTTTT-TCTTTT
* * *
62113 AAGCCCACAACTTCGTGGCA-TTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTT-CTTTT
* *
62145 AAGTCCACCACTCCATGGCACC----T-TTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* *
62172 AAGTCCACAACTCCATGGCACCTTGTTCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
*
62204 AAAGTCCACAACTCTGTGGCACC-TTTTCTTTTT
1 -AAGTCCACAACTCCGTGGCACCTTTTTC-TTTT
* *
62237 AAATCCCACAACTCCATGGCACCTT
1 AAGT-CCACAACTCCGTGGCACCTT
62262 CCTCTAAAGC
Statistics
Matches: 1367, Mismatches: 268, Indels: 196
0.75 0.15 0.11
Matches are distributed among these distances:
26 1 0.00
27 188 0.14
28 55 0.04
29 25 0.02
30 4 0.00
31 27 0.02
32 406 0.30
33 472 0.35
34 177 0.13
35 12 0.01
ACGTcount: A:0.22, C:0.29, G:0.12, T:0.37
Consensus pattern (32 bp):
AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
Found at i:60643 original size:65 final size:64
Alignment explanation
Indices: 60496--62261 Score: 1100
Period size: 65 Copynumber: 27.9 Consensus size: 64
60486 CTTTTTTGAA
*
60496 AAGTCCACAAC-TCTGTGGCA-TTTTTTCCTTTTAAGTCCATC-ACTCCGTGGCA-C----CCTT
1 AAGTCCACAACTTC-GTGGCACCTTTTT-CTTTTAAGTCCA-CAACTCCGTGGCACCTTTTCCTT
*
60553 AT
63 TT
* * *
60555 AAGTCCACAAC-TCTGTGGCACCTTGTTTCTTTTAAGCCCACAACTCCGTGGCATCTTTTCCTTC
1 AAGTCCACAACTTC-GTGGCACCTT-TTTCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTT
*
60619 A
64 T
* * *
60620 AAGTCCACAATTTCATGGCACCTTGTTTCTTTTAAGTCCACAACTCCGTGGCATCTTTTCCTTTT
1 AAGTCCACAACTTCGTGGCACCTT-TTTCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* * * * * *
60685 AAGTCCATAACTCCGTGGCACC-----CTTTTTAGTCTACAACTCTGTGACACCTTGTTCCTTTT
1 AAGTCCACAACTTCGTGGCACCTTTTTCTTTTAAGTCCACAACTCCGTGGCACCTT-TTCCTTTT
* * ** * *
60745 AAGTCCACAACTTCGTTGCCCCTTTTTCCTTCAAAATCCACAACTCCGTAGCACCTTGTTCCTTT
1 AAGTCCACAACTTCGTGGCACCTTTTT-CTTTTAAGTCCACAACTCCGTGGCACCTT-TTCCTTT
60810 T
64 T
* * *
60811 AAGTCCACAACTCCGTGG----TTTTCCTTTTAAGTCCACAACTCCGTGG----TTTTCTTTTT
1 AAGTCCACAACTTCGTGGCACCTTTTTCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* * * *
60867 AAGTCCACAACTCCGTGGCA-C----TCTTTTAAATCCACAACTCCGTGGTACCTTATCCTTTT
1 AAGTCCACAACTTCGTGGCACCTTTTTCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* * * *
60926 AAGTCCACAACTCCGTGGTACCTTATCCTTTTAAGTCCACAACTCCGTGGCA-C---T-CTTTT
1 AAGTCCACAACTTCGTGGCACCTTTTTCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* * * * *
60985 AAGTCCACAAC-TCTGTGGTACCTTGTTCCTTTTAAGTTCACAACTCTGTGGCACCTTTT-TTTT
1 AAGTCCACAACTTC-GTGGCACCTT-TTTCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTT
61048 T
64 T
* * * * * * * **
61049 GAGTCCATAA-TTCTATAGCACC-TTTTCTTCTTAAAGCCCATAACTCCGTGGTATTTTTTCCTT
1 AAGTCCACAACTTC-GTGGCACCTTTTTCTT-TT-AAGTCCACAACTCCGTGGCACCTTTTCCTT
**
61112 CA
63 TT
* * * * * *
61114 AAGTCCACAACTCCATGGCACCTTGTTCTTTTGAAGTCCACAACTCCATGGCATCTTATTCTTTT
1 AAGTCCACAACTTCGTGGCACCTTTTTCTTTT-AAGTCCACAACTCCGTGGCACCTT-TTCCTTT
61179 T
64 T
* * * *
61180 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCTGTAGCACCTTGTTTCTT
1 AAGTCCACAACTTCGTGGCACCTTTTTCTTTT--AAGTCCACAACTCCGTGGCACCTT-TTCCTT
61245 TT
63 TT
* * * ** *
61247 AAGTCTACAAC-TCTGTGGCATCTTTTCCTTTTAAGTCCATTACTCCGTGGTACC---T--TTTT
1 AAGTCCACAACTTC-GTGGCACCTTTTTCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* * * * **
61306 AAGTCCACAAC-TCTGTGGCACCTTGTTCCTTTTAATTCCACAACTCCCTGGCACATTTTTTTTT
1 AAGTCCACAACTTC-GTGGCACCTT-TTTCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTT
61370 T
64 T
* * * ** *
61371 CAAAGTCCACAACTCCGTGGGACCTTATTCTTTTTAAGTCCACAACTTTGTGGCACATTTT-CTT
1 --AAGTCCACAACTTCGTGGCACCTTTTTC-TTTTAAGTCCACAACTCCGTGGCACCTTTTCCTT
*
61435 CTCA
63 -T-T
* * * * ** * * *
61439 AAGCCCATAAC-TCTGTGGCATCTTTTCCTTCAAAGTCCACAACTCTGTGGTACCTTGTTCATTT
1 AAGTCCACAACTTC-GTGGCACCTTTTTCTTTTAAGTCCACAACTCCGTGGCACCTT-TTCCTTT
61503 T
64 T
* * * * * * *
61504 AAGTCCACAAC-TCTGTGGTACCTTTTTCTTCGTAAAGCCCATAACTTCATGGCATCTTTTCCTT
1 AAGTCCACAACTTC-GTGGCACCTTTTTCTT--TTAAGTCCACAACTCCGTGGCACCTTTTCCTT
61568 TT
63 TT
* * * * *
61570 AAGTCCAAAACTCCATGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTCT
1 AAGTCCACAACTTCGTGGCACCTT-TTTCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTT-T
*
61635 CA
64 -T
* * * * * * *
61637 AAGCCCACAACTCCGTGGCATCTTTTCCTTTTAAGTCCATAACTTCGTGACA-C----CCTTTT
1 AAGTCCACAACTTCGTGGCACCTTTTTCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* * * * * * * ** * *
61696 AAGTCTATAACTTCATGGCACTTTTTTCTTCTCAAAGGCCACAACTCTGTGATATCTTTTCCTTC
1 AAGTCCACAACTTCGTGGCACCTTTTTCTT-T-TAAGTCCACAACTCCGTGGCACCTTTTCCTTT
*
61761 A
64 T
* * * * *** * * *
61762 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCATAATTTTATGGCACTTTTTTCTTTA
1 AAGTCCACAACTTCGTGGCACCTT-TTTCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* * * * * *
61827 AAGCCCATAAC-TCTATGGCATCTTTTCCTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTTT
1 AAGTCCACAACTTC-GTGGCACCTTTTTCTTTTAAGTCCACAACTCCGTGGCACCTT-TTCCTTT
61891 T
64 T
* * * * **
61892 AAGTCCACAAC-TCTATGGCACATTTTTCTTTTCAAAGCCCACAACTCCGTGCCATTTTTTCCTT
1 AAGTCCACAACTTC-GTGGCACCTTTTTCTTTT--AAGTCCACAACTCCGTGGCACCTTTTCCTT
61956 TT
63 TT
* *
61958 AAGTCCACAACTTCATGGCACC-----CTTTTAAGTCCACAACTCTGTGGCACCTCTTT-CTTTT
1 AAGTCCACAACTTCGTGGCACCTTTTTCTTTTAAGTCCACAACTCCGTGGCACCT-TTTCCTTTT
* * *
62017 CAAAGCCCACAACTTCGTGGCATCTTTTTTTTTTAAGT---CAACTCCGTGGCA-CTTGTTCCTT
1 --AAGTCCACAACTTCGTGGCACCTTTTTCTTTTAAGTCCACAACTCCGTGGCACCTT-TTCCTT
62078 TT
63 TT
* * * * * ** * * **
62080 AAGTCCATAACTCCATGGAACATTTTCTCTTCAAAGCCCACAACTTCGTGGCATTTTTTCCTTTT
1 AAGTCCACAACTTCGTGGCACCTTTT-TCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* * * *
62145 AAGTCCACCACTCCATGGCACC----T-TTTTAAGTCCACAACTCCATGGCACCTTGTT-CTTTT
1 AAGTCCACAACTTCGTGGCACCTTTTTCTTTTAAGTCCACAACTCCGTGGCACCTT-TTCCTTTT
* *
62204 AAAGTCCACAAC-TCTGTGGCACC-TTTTCTTTTTAAATCCCACAACTCCATGGCACCTT
1 -AAGTCCACAACTTC-GTGGCACCTTTTTC-TTTTAAGT-CCACAACTCCGTGGCACCTT
62262 CCTCTAAAGC
Statistics
Matches: 1341, Mismatches: 265, Indels: 195
0.74 0.15 0.11
Matches are distributed among these distances:
55 22 0.02
56 25 0.02
57 2 0.00
58 1 0.00
59 196 0.15
60 126 0.09
61 87 0.06
62 20 0.01
63 23 0.02
64 89 0.07
65 328 0.24
66 249 0.19
67 172 0.13
68 1 0.00
ACGTcount: A:0.22, C:0.29, G:0.12, T:0.37
Consensus pattern (64 bp):
AAGTCCACAACTTCGTGGCACCTTTTTCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
Found at i:60723 original size:27 final size:27
Alignment explanation
Indices: 60648--60733 Score: 73
Period size: 32 Copynumber: 3.0 Consensus size: 27
60638 CACCTTGTTT
*
60648 CTTTTAAGTCCACAACTCCGTGGCATCTTTTC
1 CTTTTAAGTCCACAACTCCGTGACA-C----C
* *
60680 CTTTTAAGTCCATAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGACACC
* * *
60707 CTTTTTAGTCTACAACTCTGTGACACC
1 CTTTTAAGTCCACAACTCCGTGACACC
60734 TTGTTCCTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
27 23 0.48
31 1 0.02
32 24 0.50
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.35
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGACACC
Found at i:61618 original size:324 final size:320
Alignment explanation
Indices: 60554--62261 Score: 923
Period size: 324 Copynumber: 5.4 Consensus size: 320
60544 GGCACCCTTA
* * *
60554 TAAGTCCACAACTCTGTGGCACCTTGTTTCTT-T-TAAGCCCACAACTCCGTG-GCATCTT-TTC
1 TAAGTCCACAACTCCGTGGCACCTT-TTTCTTGTCAAAGCCCACAACT-C-TGAGCACCTTGTTC
** * * * *
60615 CTTCAAAGTCCACAATTTCATGGCACCTTGTTTCTTTTAAGTCCACAACTCCGTGGCATCTTTTC
63 CTTTTAAGTCCACAACTCCGTGGCACCTT-TTCCTTTTAAGTCCACAACTCCGTGGCA-C----C
* * * * ** *
60680 CTTTTAAGTCCATAACTCCGTGGCA-C-----CCTTTTTAG-TCTACAACTCTGTGACACCTTGT
122 TTTTTAAGTCCACAACTCTGTGGCACCTTGTTCCTTTTAAGTTC-ACAACTCCCTGGCACCTT-T
* * * * * * ** * *
60738 TCCTTTTAAGTCCACAACTTCGTTGCCCCTTTT-TCCTTCAAAATCCACAACTCCGTAGCACCTT
185 T-TTTTTAAGTCCACAACTCCATAGCACCTTTTCTTCTT-AAAGCCCACAACTCCGTGGCACATT
** * * ** *
60802 GTTCCTTTTAAGTCCACAACTCCGTGG----TT-TTCCTTTTAAGTCCACAACTCCGTGG----T
248 -TTCCTTCAAAGCCCACAACTCCATGGCACCTTGTTCCTTCAAAGTCCACAACTCCATGGCACCT
*
60858 T-TTCTTTT
312 TATTCATTT
* * * *
60866 TAAGTCCACAACTCCGTGGCA-C----TCTT-TTAAA-TCCACAACTCCGTG-GTACCTT-ATCC
1 TAAGTCCACAACTCCGTGGCACCTTTTTCTTGTCAAAGCCCACAACT-C-TGAGCACCTTGTTCC
* *
60922 TTTTAAGTCCACAACTCCGTGGTACCTTATCCTTTTAAGTCCACAACTCCGTGGCA-CTCTTTTA
64 TTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCT-TTTTA
* ** *
60986 AGTCCACAACTCTGTGGTACCTTGTTCCTTTTAAGTTCACAACTCTGTGGCACCTTTTTTTTTGA
128 AGTCCACAACTCTGTGGCACCTTGTTCCTTTTAAGTTCACAACTCCCTGGCACCTTTTTTTTTAA
* * * * * **
61051 GTCCATAATTCTATAGCACCTTTTCTTCTTAAAGCCCATAACTCCGTGGTATTTTTTCCTTCAAA
193 GTCCACAACTCCATAGCACCTTTTCTTCTTAAAGCCCACAACTCCGTGGCACATTTTCCTTCAAA
* * ** * *
61116 GTCCACAACTCCATGGCACCTTGTTCTTTTGAAGTCCACAACTCCATGGCATCTTATTCTTTT
258 GCCCACAACTCCATGGCACCTTGTTCCTTCAAAGTCCACAACTCCATGGCACCTTATTCATTT
* * *
61179 TAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCTGTAGCACCTTGTTTCT
1 TAAGTCCACAACTCCGTGGCACCTTTTTCTTGTCAAAGCCCACAACTCTG-AGCACCTTGTTCCT
* * * ** *
61244 TTTAAGTCTACAACTCTGTGGCATCTTTTCCTTTTAAGTCCATTACTCCGTGGTACCTTTTTAAG
65 TTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAG
*
61309 TCCACAACTCTGTGGCACCTTGTTCCTTTTAA-TTCCACAACTCCCTGGCACATTTTTTTTTTCA
130 TCCACAACTCTGTGGCACCTTGTTCCTTTTAAGTT-CACAACTCCCTGGCAC-CTTTTTTTTT--
* * * * * ** *
61373 AAGTCCACAACTCCGTGGGACCTTATTCTT-TTTAAGTCCACAACTTTGTGGCACATTTTCTTCT
191 AAGTCCACAACTCCATAGCACCTT-TTCTTCTTAAAGCCCACAACTCCGTGGCACATTTTCCT-T
* ** * ** * *
61437 CAAAGCCCATAACTCTGTGGCATCTT-TTCCTTCAAAGTCCACAACTCTGTGGTACCTTGTTCAT
254 CAAAGCCCACAACTCCATGGCACCTTGTTCCTTCAAAGTCCACAACTCCATGGCACCTTATTCAT
61501 TT
319 TT
* * * *
61503 TAAGTCCACAACTCTGTGGTACCTTTTTCTTCGT-AAAGCCCATAACTTCATG-GCATCTT-TTC
1 TAAGTCCACAACTCCGTGGCACCTTTTTCTT-GTCAAAGCCCACAAC-TC-TGAGCACCTTGTTC
* *
61565 CTTTTAAGTCCAAAACTCCATGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
63 CTTTTAAGTCCACAACTCCGTGGCACCTT-TTCCTTTTAAGTCCACAACTCCGTGGCACC---TT
* * * * * * * *
61630 CTTCTCAAAGCCCACAACTCCGTGGCATCTT-TTCCTTTTAAGTCCATAACTTCGTGACACC---
124 -TT-T--AAGTCCACAACTCTGTGGCACCTTGTTCCTTTTAAGTTCACAACTCCCTGGCACCTTT
* * * * * * * * * **
61691 -CTTTTAAGTCTATAACTTCATGGCACTTTTTTCTTCTCAAAGGCCACAACTCTGTGATATC-TT
185 TTTTTTAAGTCCACAACTCCATAGCAC-CTTTTCTTCTTAAAGCCCACAACTCCGTGGCA-CATT
* * ** * * ** *
61754 TTCCTTCAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCATAATTTTATGGCACTTT
248 TTCCTTCAAAGCCCACAACTCCATGGCACCTTGTTCCTTCAAAGTCCACAACTCCATGGCACCTT
*
61819 TTTC-TTT
313 ATTCATTT
* * * ** * * *
61826 AAAGCCCATAACTCTATGGCATCTTTTCCTT-T-AAAGTCCACAACTCCGTG-GCACCTTGTTCC
1 TAAGTCCACAACTCCGTGGCACCTTTTTCTTGTCAAAGCCCACAACT-C-TGAGCACCTTGTTCC
** * * * *
61888 TTTTAAGTCCACAACTCTATGGCACATTTTTCTTTTCAAAGCCCACAACTCCGTGCCATTTTTTC
64 TTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTT--AAGTCCACAACTCCGTGGCA------C
* * **
61953 C-TTTTAAGTCCACAACT-TCATGGCA-C-----CCTTTTAAGTCCACAACTCTGTGGCACCTCT
121 CTTTTTAAGTCCACAACTCT-GTGGCACCTTGTTCCTTTTAAGTTCACAACTCCCTGGCACCT-T
* * * * * * * * *
62010 TTCTTTTCAAAGCCCACAACTTCGTGGCATCTTTT-TTTTTTAAG---TCAACTCCGTGGCAC-T
184 TT-TTTT-TAAGTCCACAACTCCATAGCACCTTTTCTTCTTAAAGCCCACAACTCCGTGGCACAT
** * * * * * * *
62070 TGTTCCTTTTAAGTCCATAACTCCATGGAACATT-TTCTCTTCAAAGCCCACAACTTCGTGGCA-
247 T-TTCCTTCAAAGCCCACAACTCCATGGCACCTTGTTC-CTTCAAAGTCCACAACTCCATGGCAC
* * *
62133 TTTTTTCCTTT
310 CTTATTCATTT
* * *
62144 TAAGTCCACCACTCCATGGCACC---TT-TT-T--AAGTCCACAACTCCATG-GCACCTTGTT-C
1 TAAGTCCACAACTCCGTGGCACCTTTTTCTTGTCAAAGCCCACAACT-C-TGAGCACCTTGTTCC
* * * *
62200 TTTTAAAGTCCACAACTCTGTGGCACCTTTTCTTTTTAAATCCCACAACTCCATGGCACCTT
64 TTTT-AAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGT-CCACAACTCCGTGGCACCTT
62262 CCTCTAAAGC
Statistics
Matches: 1111, Mismatches: 208, Indels: 159
0.75 0.14 0.11
Matches are distributed among these distances:
299 1 0.00
300 21 0.02
301 1 0.00
303 23 0.02
304 40 0.04
305 32 0.03
306 75 0.07
307 7 0.01
308 23 0.02
311 3 0.00
312 41 0.04
313 82 0.07
314 4 0.00
315 1 0.00
316 24 0.02
317 13 0.01
318 80 0.07
319 5 0.00
320 19 0.02
321 151 0.14
322 47 0.04
323 132 0.12
324 197 0.18
325 36 0.03
326 2 0.00
327 2 0.00
328 2 0.00
329 3 0.00
330 22 0.02
331 22 0.02
ACGTcount: A:0.22, C:0.29, G:0.12, T:0.37
Consensus pattern (320 bp):
TAAGTCCACAACTCCGTGGCACCTTTTTCTTGTCAAAGCCCACAACTCTGAGCACCTTGTTCCTT
TTAAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGT
CCACAACTCTGTGGCACCTTGTTCCTTTTAAGTTCACAACTCCCTGGCACCTTTTTTTTTAAGTC
CACAACTCCATAGCACCTTTTCTTCTTAAAGCCCACAACTCCGTGGCACATTTTCCTTCAAAGCC
CACAACTCCATGGCACCTTGTTCCTTCAAAGTCCACAACTCCATGGCACCTTATTCATTT
Found at i:62176 original size:27 final size:27
Alignment explanation
Indices: 62141--62195 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
62131 CATTTTTTCC
*
62141 TTTTAAGTCCACCACTCCATGGCACCT
1 TTTTAAGTCCACAACTCCATGGCACCT
62168 TTTTAAGTCCACAACTCCATGGCACCT
1 TTTTAAGTCCACAACTCCATGGCACCT
62195 T
1 T
62196 GTTCTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.24, C:0.35, G:0.11, T:0.31
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCATGGCACCT
Found at i:62475 original size:32 final size:32
Alignment explanation
Indices: 62391--62615 Score: 235
Period size: 32 Copynumber: 7.0 Consensus size: 32
62381 TAAGTGGAGA
* *
62391 AACCTTCTTCAAAGCCCATACAAGTTGGTGGC
1 AACCCTCTTCAAAGCCCACACAAGTTGGTGGC
*
62423 AATCCTCTTCAAAAGCCCACACAAGTCT-GTGGC
1 AACCCTCTTC-AAAGCCCACACAAGT-TGGTGGC
*
62456 AGCCCTCTTCAAAGCCCACACAAGTTGGTGGC
1 AACCCTCTTCAAAGCCCACACAAGTTGGTGGC
* * * *
62488 AATCCTTCTT-AAAACCCACATAAGTTAGTGGC
1 AA-CCCTCTTCAAAGCCCACACAAGTTGGTGGC
62520 AACCCT-TTCAAAAG-CCACACAAGTTGGTGGC
1 AACCCTCTTC-AAAGCCCACACAAGTTGGTGGC
* * * **
62551 AACCTTTTTTAAAGCCCACACAAGTCAGTGGC
1 AACCCTCTTCAAAGCCCACACAAGTTGGTGGC
* *
62583 GACCCT-TTCAAAAGACCACACAAGTTGGTGGC
1 AACCCTCTTC-AAAGCCCACACAAGTTGGTGGC
62615 A
1 A
62616 TCTTTTTCTA
Statistics
Matches: 159, Mismatches: 25, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
30 2 0.01
31 30 0.19
32 93 0.58
33 33 0.21
34 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (32 bp):
AACCCTCTTCAAAGCCCACACAAGTTGGTGGC
Found at i:62546 original size:63 final size:64
Alignment explanation
Indices: 62401--62615 Score: 278
Period size: 63 Copynumber: 3.4 Consensus size: 64
62391 AACCTTCTTC
* *
62401 AAAGCCCATACAAGTTGGTGGCAATCC-TCTTCAAAAGCCCACACAAGTCT-GTGGCAGCCCTCT
1 AAAGCCCACACAAGTTGGTGGCAATCCTTCTT-AAAA-CCCACACAAGT-TAGTGGCAACCCT-T
62464 TC-
62 TCA
*
62466 AAAGCCCACACAAGTTGGTGGCAATCCTTCTTAAAACCCACATAAGTTAGTGGCAACCCTTTCA
1 AAAGCCCACACAAGTTGGTGGCAATCCTTCTTAAAACCCACACAAGTTAGTGGCAACCCTTTCA
* * * *
62530 AAAG-CCACACAAGTTGGTGGCAA-CCTTTTTTAAAGCCCACACAAGTCAGTGGCGACCCTTTCA
1 AAAGCCCACACAAGTTGGTGGCAATCC-TTCTTAAAACCCACACAAGTTAGTGGCAACCCTTTCA
*
62593 AAAGACCACACAAGTTGGTGGCA
1 AAAGCCCACACAAGTTGGTGGCA
62616 TCTTTTTCTA
Statistics
Matches: 137, Mismatches: 8, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
62 2 0.01
63 59 0.43
64 42 0.31
65 30 0.22
66 4 0.03
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (64 bp):
AAAGCCCACACAAGTTGGTGGCAATCCTTCTTAAAACCCACACAAGTTAGTGGCAACCCTTTCA
Found at i:62582 original size:95 final size:98
Alignment explanation
Indices: 62393--62615 Score: 251
Period size: 95 Copynumber: 2.3 Consensus size: 98
62383 AGTGGAGAAA
* * * * *
62393 CCTTCTTCAAAGCCCATACAAGTTGGTGGCAATCCTCTTCAAAAGCCCACACAAGTCTGTGGCAG
1 CCTTCTTCAAAACCCACACAAGTTAGTGGCAACCCTCTTCAAAAGCCCACACAAGTCTGTGGCAA
**
62458 CCCTCTTCAAAGCCCACACAAGTTGGTGGCAAT
66 CCCTCTTCAAAGCCCACACAAGTCAGTGGCAAT
*
62491 CCTTCTT-AAAACCCACATAAGTTAGTGGCAACCCT-TTCAAAAG-CCACACAAGT-TGGTGGCA
1 CCTTCTTCAAAACCCACACAAGTTAGTGGCAACCCTCTTCAAAAGCCCACACAAGTCT-GTGGCA
* * * *
62552 ACCTTTTTTAAAGCCCACACAAGTCAGTGGCGA-
65 ACCCTCTTCAAAGCCCACACAAGTCAGTGGCAAT
* * *
62585 CCCT-TTCAAAAGACCACACAAGTTGGTGGCA
1 CCTTCTTCAAAA-CCCACACAAGTTAGTGGCA
62616 TCTTTTTCTA
Statistics
Matches: 106, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
93 2 0.02
94 8 0.08
95 58 0.55
96 8 0.08
97 23 0.22
98 7 0.07
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (98 bp):
CCTTCTTCAAAACCCACACAAGTTAGTGGCAACCCTCTTCAAAAGCCCACACAAGTCTGTGGCAA
CCCTCTTCAAAGCCCACACAAGTCAGTGGCAAT
Found at i:62762 original size:43 final size:43
Alignment explanation
Indices: 62714--63048 Score: 125
Period size: 52 Copynumber: 7.2 Consensus size: 43
62704 TGCCTTTGTT
* * ** **
62714 CATCTTTAAGTCTAATGTCGCTGGCTTTGAATCAGTGTATTGG
1 CATCTTTAAGTCCAATATCGCTAACTTTGAATCAGCATATTGG
*
62757 CATCTTTAAGTCCAATATCGCTAACTTTGAATTAGCATATTGG
1 CATCTTTAAGTCCAATATCGCTAACTTTGAATCAGCATATTGG
* ** * *
62800 CATCTTTACCACCTTTAAGTTCAATATCGCTGGCTTGGAATTAGCATATTGGTGCCTTTG
1 CA----T-----CTTTAAGTCCAATATCGCTAACTTTGAATCAGCATA-T--TG-----G
* ** * *
62860 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATCTTGG
1 -CATCTTTAAGTCCAATATCGCTAACTTTGAATCAGCATATTGG
* * * * *
62904 CACCTTTAAGTCGAATATCGCTAGCCTTGAATCAGCATATTAG
1 CATCTTTAAGTCCAATATCGCTAACTTTGAATCAGCATATTGG
* ** * *
62947 CACCTTTACCACTTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG
1 CA----T----C-TTTAAGTCCAATATCGCTAACTTTGAATCAGCATATTGG
* ** *
62999 CA-CTTTAAGTCCAATATCGTTGGC-CTGAATCAGCATATTGG
1 CATCTTTAAGTCCAATATCGCTAACTTTGAATCAGCATATTGG
*
63040 CATTTTTAA
1 CATCTTTAA
63049 CATTCTTAAG
Statistics
Matches: 230, Mismatches: 34, Indels: 57
0.72 0.11 0.18
Matches are distributed among these distances:
41 17 0.07
42 24 0.10
43 78 0.34
44 1 0.00
47 1 0.00
49 2 0.01
51 2 0.01
52 98 0.43
53 1 0.00
55 2 0.01
57 1 0.00
60 1 0.00
61 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (43 bp):
CATCTTTAAGTCCAATATCGCTAACTTTGAATCAGCATATTGG
Found at i:62841 original size:52 final size:51
Alignment explanation
Indices: 62760--63005 Score: 197
Period size: 52 Copynumber: 4.9 Consensus size: 51
62750 GTATTGGCAT
** *
62760 CTTTAAGTCCAATATCGCTAACTTTGAATTAGCATATTGGCATCTTTACCAC
1 CTTTAAGTCCAATATCGCTGGC-TTGAATTAGCATATTGGCACCTTTACCAC
* ** ** *
62812 CTTTAAGTTCAATATCGCTGGCTTGGAATTAGCATATTGGTGCCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCTT-GAATTAGCATATTGGCACCTTTACCAC
* * *
62864 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATCTTGG---------CAC
1 CTTTAAGTCCAATATCGCTGG-CTTGAATTAGCATATTGGCACCTTTACCAC
* * * *
62907 CTTTAAGTCGAATATCGCTAGCCTTGAATCAGCATATTAGCACCTTTACCAC
1 CTTTAAGTCCAATATCGCT-GGCTTGAATTAGCATATTGGCACCTTTACCAC
* * * *
62959 TTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTTA
1 CTTTAAGTCCAATATCGCTGG-CTTGAATTAGCATATTGGCACCTTTA
63006 AGTCCAATAT
Statistics
Matches: 156, Mismatches: 25, Indels: 27
0.75 0.12 0.13
Matches are distributed among these distances:
43 35 0.22
44 1 0.01
51 8 0.05
52 109 0.70
53 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.35
Consensus pattern (51 bp):
CTTTAAGTCCAATATCGCTGGCTTGAATTAGCATATTGGCACCTTTACCAC
Found at i:62915 original size:147 final size:148
Alignment explanation
Indices: 62662--62998 Score: 444
Period size: 147 Copynumber: 2.3 Consensus size: 148
62652 GTACATTGGT
** * * * * *
62662 ACCTTTAAGTTTAATATTGTTGACCTTAAATCAGCATATTGGTGCCTTTGTTCATCTTTAAGTCT
1 ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTTCATCTTTAAGTCC
* ** * * *
62727 AATGTCGCTGGCTTTGAATCAGTGTATTGGCATCTTTAAGTCCAATATCGCTAACTTTGAATTAG
66 AATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATATCGCTAACCTTGAATCAG
* *
62792 CATATTGGCATCTTTACC
131 CATATTAGCACCTTTACC
* *
62810 ACCTTTAAGTTCAATATCGCTGG-CTTGGAATTAGCATATTGGTGCCTTTG-TCATCTTTAAGTC
1 ACCTTTAAGTCCAATATCGCTGGCCTT-GAATCAGCATATTGGTGCCTTTGTTCATCTTTAAGTC
* * *
62873 CAATGTCGCTGGCCTTGAATCAGCATCTTGGCACCTTTAAGTCGAATATCGCTAGCCTTGAATCA
65 CAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATATCGCTAACCTTGAATCA
62938 GCATATTAGCACCTTTACC
130 GCATATTAGCACCTTTACC
* * *
62957 ACTTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG
1 ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
62999 CACTTTAAGT
Statistics
Matches: 164, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
147 121 0.74
148 43 0.26
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.36
Consensus pattern (148 bp):
ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTTCATCTTTAAGTCC
AATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATATCGCTAACCTTGAATCAG
CATATTAGCACCTTTACC
Found at i:63040 original size:41 final size:42
Alignment explanation
Indices: 62960--63041 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
62950 CTTTACCACT
*
62960 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* *
63002 TTTAAGTCCAATATCGTTGGCC-TGAATCAGCATATTGGCA
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
63042 TTTTTAACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
41 17 0.46
42 20 0.54
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (42 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:63048 original size:42 final size:42
Alignment explanation
Indices: 62959--63045 Score: 131
Period size: 41 Copynumber: 2.1 Consensus size: 42
62949 CCTTTACCAC
*
62959 TTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 TTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * *
63001 CTTTAAGTCCAATATCGTTGGCC-TGAATCAGCATATTGGCA
1 TTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
63042 TTTT
1 TTTT
63046 TAACATTCTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 20 0.50
42 20 0.50
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (42 bp):
TTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:63081 original size:93 final size:95
Alignment explanation
Indices: 62809--63093 Score: 330
Period size: 95 Copynumber: 3.0 Consensus size: 95
62799 GCATCTTTAC
* * * * ** **
62809 CACCTTTAAGTTCAATATCGCT-GGCTTGGAATTAGCATATTGGTGCCTTTGTCA-TCTTTAAGT
1 CACCTTTAAGTCCAATATCGCTAGCCTT-GAATCAGCATATTAGCACCTTTAACACT-TTTAAGT
62872 CCAATGTCGCTGGCCTTGAATCAGCATC-TTGG
64 CCAATGTCGCTGGCCTTGAATCAGCA-CATTGG
* *
62904 CACCTTTAAGTCGAATATCGCTAGCCTTGAATCAGCATATTAGCACCTTTACCACTTTTAAGTCC
1 CACCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTAGCACCTTTAACACTTTTAAGTCC
62969 AATGTCGCTGGCCTTGAATCAGCACATTGG
66 AATGTCGCTGGCCTTGAATCAGCACATTGG
* * * ** *
62999 CA-CTTTAAGTCCAATATCGTTGGCC-TGAATCAGCATATTGGCATTTTTAACA-TTCTTAAGCC
1 CACCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTAGCACCTTTAACACTT-TTAAGTC
* *
63061 CAATGTCGTTGGCCTTGAATCAGCATATTGG
65 CAATGTCGCTGGCCTTGAATCAGCACATTGG
63092 CA
1 CA
63094 TTTTTAACAT
Statistics
Matches: 167, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
92 2 0.01
93 60 0.36
94 21 0.13
95 79 0.47
96 5 0.03
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.33
Consensus pattern (95 bp):
CACCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTAGCACCTTTAACACTTTTAAGTCC
AATGTCGCTGGCCTTGAATCAGCACATTGG
Found at i:63095 original size:52 final size:52
Alignment explanation
Indices: 63019--63247 Score: 261
Period size: 52 Copynumber: 4.4 Consensus size: 52
63009 CCAATATCGT
* *
63019 TGGCC-TGAATCAGCATATTGGCATTTTTAACATTCTTAAGCCCAATGTCGT
1 TGGCCTTGAATCAGCATATTGGCATTTTTAACATTCTTAAGCCTAATGTCGC
63070 TGGCCTTGAATCAGCATATTGGCATTTTTAACATTCTTAAGCCTAATGTCGC
1 TGGCCTTGAATCAGCATATTGGCATTTTTAACATTCTTAAGCCTAATGTCGC
* * * * ** * *
63122 TAGCCTTGAATCAGCACATTGGCAGTCTTCTCA-TCTTCAAGTCTAATGTCAC
1 TGGCCTTGAATCAGCATATTGGCATTTTTAACATTCTT-AAGCCTAATGTCGC
* * * *
63174 TGG-CTGTGAATCAGCACATTGACATTCTTT-GCATT-TTAAAGCCTAATATCGC
1 TGGCCT-TGAATCAGCATATTGGCATT-TTTAACATTCTT-AAGCCTAATGTCGC
63226 TGGCCTTGAATCAGCATATTGG
1 TGGCCTTGAATCAGCATATTGG
63248 TGCATTTCTC
Statistics
Matches: 151, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
51 11 0.07
52 135 0.89
53 5 0.03
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.34
Consensus pattern (52 bp):
TGGCCTTGAATCAGCATATTGGCATTTTTAACATTCTTAAGCCTAATGTCGC
Found at i:63257 original size:104 final size:101
Alignment explanation
Indices: 63003--63262 Score: 269
Period size: 104 Copynumber: 2.5 Consensus size: 101
62993 CATTGGCACT
* *
63003 TTAAGTCC-AATATCGTTGGCC-TGAATCAGCATATTGGCATTTTTAACATTCTTAAGCCCAATG
1 TTAAG-CCTAATATCGCTGGCCTTGAATCAGCATATTGGCATTTCT--CA-TCTTAAGCCCAATG
** * *
63066 TCGTTGGCCTTGAATCAGCATATTGGCATTTTTAACATTC
62 TCACTGGCCTTGAATCAGCACATTGACATTTTTAACATTC
* * * * *
63106 TTAAGCCTAATGTCGCTAGCCTTGAATCAGCACATTGGCAGTCTTCTCATCTTCAAGTCTAATGT
1 TTAAGCCTAATATCGCTGGCCTTGAATCAGCATATTGGCA-T-TTCTCATCTT-AAGCCCAATGT
*
63171 CACTGG-CTGTGAATCAGCACATTGACATTCTTT-GCATT-
63 CACTGGCCT-TGAATCAGCACATTGACATT-TTTAACATTC
63209 TTAAAGCCTAATATCGCTGGCCTTGAATCAGCATATTGGTGCATTTCTCATCTT
1 TT-AAGCCTAATATCGCTGGCCTTGAATCAGCATATT-G-GCATTTCTCATCTT
63263 TATCATCTTC
Statistics
Matches: 132, Mismatches: 15, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
102 2 0.02
103 23 0.17
104 95 0.72
105 6 0.05
106 6 0.05
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (101 bp):
TTAAGCCTAATATCGCTGGCCTTGAATCAGCATATTGGCATTTCTCATCTTAAGCCCAATGTCAC
TGGCCTTGAATCAGCACATTGACATTTTTAACATTC
Found at i:64062 original size:27 final size:27
Alignment explanation
Indices: 64024--64076 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
64014 TTTTACGCAG
*
64024 ATGTATCGATACATTA-TACAATGTATA
1 ATGTATCAATACATTATTA-AATGTATA
64051 ATGTATCAATACATTATTAAATGTAT
1 ATGTATCAATACATTATTAAATGTAT
64077 TGATACATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (27 bp):
ATGTATCAATACATTATTAAATGTATA
Done.